Hello there,
I am not quite sure how to interpret the output of Rprof (in the following the
output I was staring at). I was poking around the web a little bit for
documentation but without much success. I guess if I want to figure out what
takes so long in my code the 2nd table $by.total and the total.pct column (pct
= percent) is the most helpful. What does it mean that [ or [.data.frame is
taking so much time, and is there something I could do to improve the situation.
Thanks,
-- D
> summaryRprof(tmp)
$by.self
self.time self.pct total.time total.pct
eval.with.vis 75.92 22.4 339.18 100.0
[.data.frame 46.28 13.6 186.36 54.9
structure 31.78 9.4 79.92 23.6
inherits 27.28 8.0 29.08 8.6
match 20.38 6.0 53.84 15.9
names 20.20 6.0 20.20 6.0
length 9.68 2.9 9.68 2.9
pmatch 9.02 2.7 10.46 3.1
[ 8.56 2.5 194.92 57.5
eval 5.84 1.7 31.02 9.1
any 5.78 1.7 6.88 2.0
match.arg 5.68 1.7 40.54 12.0
is.factor 4.68 1.4 32.28 9.5
cor 4.66 1.4 67.44 19.9
[[ 4.32 1.3 13.46 4.0
stopifnot 4.10 1.2 11.94 3.5
<Anonymous> 4.08 1.2 4.56 1.3
deparse 3.86 1.1 23.92 7.1
[[.data.frame 3.70 1.1 9.14 2.7
== 3.20 0.9 3.20 0.9
vector 2.80 0.8 11.94 3.5
rank 2.40 0.7 22.58 6.7
> 2.16 0.6 2.16 0.6
! 1.92 0.6 1.92 0.6
%in% 1.86 0.5 25.48 7.5
switch 1.68 0.5 1.76 0.5
names<- 1.56 0.5 1.78 0.5
< 1.54 0.5 1.54 0.5
.deparseOpts 1.50 0.4 11.98 3.5
match.call 1.48 0.4 2.84 0.8
.Call 1.34 0.4 1.34 0.4
is.na 1.30 0.4 1.30 0.4
all 1.24 0.4 1.48 0.4
formals 1.22 0.4 2.46 0.7
mode 1.22 0.4 1.32 0.4
sum 1.20 0.4 1.62 0.5
sys.parent 1.14 0.3 1.14 0.3
as.character 0.98 0.3 0.98 0.3
parent.frame 0.96 0.3 0.96 0.3
attributes<- 0.90 0.3 0.90 0.3
sys.call 0.86 0.3 1.36 0.4
list 0.82 0.2 0.82 0.2
& 0.74 0.2 0.74 0.2
sys.function 0.58 0.2 1.22 0.4
attr<- 0.58 0.2 0.58 0.2
is.logical 0.56 0.2 0.56 0.2
Rank 0.54 0.2 23.18 6.8
!= 0.54 0.2 0.54 0.2
: 0.52 0.2 0.52 0.2
- 0.46 0.1 0.46 0.1
as.vector 0.44 0.1 0.44 0.1
.subset2 0.36 0.1 0.36 0.1
min 0.34 0.1 0.34 0.1
seq_along 0.34 0.1 0.34 0.1
max 0.32 0.1 0.32 0.1
is.data.frame 0.24 0.1 1.72 0.5
is.character 0.18 0.1 0.18 0.1
is.matrix 0.18 0.1 0.18 0.1
oldClass<- 0.18 0.1 0.18 0.1
is.list 0.16 0.0 0.16 0.0
( 0.14 0.0 0.14 0.0
dim 0.14 0.0 0.14 0.0
^ 0.12 0.0 0.12 0.0
is.pairlist 0.10 0.0 0.10 0.0
is.null 0.08 0.0 0.08 0.0
attributes 0.06 0.0 0.06 0.0
is.atomic 0.06 0.0 0.06 0.0
baseenv 0.04 0.0 0.04 0.0
is.call 0.04 0.0 0.04 0.0
is.name 0.04 0.0 0.04 0.0
is.expression 0.02 0.0 0.02 0.0
source 0.00 0.0 339.18 100.0
$by.total
total.time total.pct self.time self.pct
eval.with.vis 339.18 100.0 75.92 22.4
source 339.18 100.0 0.00 0.0
[ 194.92 57.5 8.56 2.5
[.data.frame 186.36 54.9 46.28 13.6
structure 79.92 23.6 31.78 9.4
cor 67.44 19.9 4.66 1.4
match 53.84 15.9 20.38 6.0
match.arg 40.54 12.0 5.68 1.7
is.factor 32.28 9.5 4.68 1.4
eval 31.02 9.1 5.84 1.7
inherits 29.08 8.6 27.28 8.0
%in% 25.48 7.5 1.86 0.5
deparse 23.92 7.1 3.86 1.1
Rank 23.18 6.8 0.54 0.2
rank 22.58 6.7 2.40 0.7
names 20.20 6.0 20.20 6.0
[[ 13.46 4.0 4.32 1.3
.deparseOpts 11.98 3.5 1.50 0.4
stopifnot 11.94 3.5 4.10 1.2
vector 11.94 3.5 2.80 0.8
pmatch 10.46 3.1 9.02 2.7
length 9.68 2.9 9.68 2.9
[[.data.frame 9.14 2.7 3.70 1.1
any 6.88 2.0 5.78 1.7
<Anonymous> 4.56 1.3 4.08 1.2
== 3.20 0.9 3.20 0.9
match.call 2.84 0.8 1.48 0.4
formals 2.46 0.7 1.22 0.4
> 2.16 0.6 2.16 0.6
! 1.92 0.6 1.92 0.6
names<- 1.78 0.5 1.56 0.5
switch 1.76 0.5 1.68 0.5
is.data.frame 1.72 0.5 0.24 0.1
sum 1.62 0.5 1.20 0.4
< 1.54 0.5 1.54 0.5
all 1.48 0.4 1.24 0.4
sys.call 1.36 0.4 0.86 0.3
.Call 1.34 0.4 1.34 0.4
mode 1.32 0.4 1.22 0.4
is.na 1.30 0.4 1.30 0.4
sys.function 1.22 0.4 0.58 0.2
sys.parent 1.14 0.3 1.14 0.3
as.character 0.98 0.3 0.98 0.3
parent.frame 0.96 0.3 0.96 0.3
attributes<- 0.90 0.3 0.90 0.3
list 0.82 0.2 0.82 0.2
& 0.74 0.2 0.74 0.2
attr<- 0.58 0.2 0.58 0.2
is.logical 0.56 0.2 0.56 0.2
!= 0.54 0.2 0.54 0.2
: 0.52 0.2 0.52 0.2
- 0.46 0.1 0.46 0.1
as.vector 0.44 0.1 0.44 0.1
.subset2 0.36 0.1 0.36 0.1
min 0.34 0.1 0.34 0.1
seq_along 0.34 0.1 0.34 0.1
max 0.32 0.1 0.32 0.1
is.character 0.18 0.1 0.18 0.1
is.matrix 0.18 0.1 0.18 0.1
oldClass<- 0.18 0.1 0.18 0.1
is.list 0.16 0.0 0.16 0.0
( 0.14 0.0 0.14 0.0
dim 0.14 0.0 0.14 0.0
^ 0.12 0.0 0.12 0.0
is.pairlist 0.10 0.0 0.10 0.0
is.null 0.08 0.0 0.08 0.0
attributes 0.06 0.0 0.06 0.0
is.atomic 0.06 0.0 0.06 0.0
baseenv 0.04 0.0 0.04 0.0
is.call 0.04 0.0 0.04 0.0
is.name 0.04 0.0 0.04 0.0
is.expression 0.02 0.0 0.02 0.0
$sampling.time
[1] 339.18
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